PDB entry 2j8u

View 2j8u on RCSB PDB site
Description: Large CDR3a loop alteration as a function of MHC mutation.
Class: immune system
Keywords: glycoprotein, immune system, transmembrane, MHC I, membrane, secreted, glycation, immunoglobulin domain, host-virus interaction, pyrrolidone carboxylic acid, immune response, disease mutation, imunoregulatory complex, class I MHC-tcr co-crystal
Deposited on 2006-10-27, released 2007-10-16
The last revision prior to the SCOPe 2.08 freeze date was dated 2018-12-12, with a file datestamp of 2018-12-07.
Experiment type: XRAY
Resolution: 2.88 Å
R-factor: N/A
AEROSPACI score: 0.16 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: HLA class I histocompatibility antigen, A-2 alpha chain
    Species: Homo sapiens [TaxId:9606]
    Gene: HLA-A, HLAA
    Database cross-references and differences (RAF-indexed):
    • Uniprot P01892 (0-274)
      • engineered mutation (65)
    Domains in SCOPe 2.08: d2j8ua1, d2j8ua2
  • Chain 'B':
    Compound: Beta-2-microglobulin
    Species: Homo sapiens [TaxId:9606]
    Gene: B2M, CDABP0092, HDCMA22P
    Database cross-references and differences (RAF-indexed):
    • Uniprot P61769 (1-99)
      • initiating methionine (0)
    Domains in SCOPe 2.08: d2j8ub2, d2j8ub3
  • Chain 'C':
    Compound: self-peptide P1049
    Species: HOMO SAPIENS, synthetic [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 2J8U (0-8)
  • Chain 'E':
    Compound: ahiii tcr alpha chain
    Species: MUS MUSCULUS [TaxId:10090]
    Database cross-references and differences (RAF-indexed):
    • PDB 2J8U (0-193)
    Domains in SCOPe 2.08: d2j8ue1, d2j8ue2
  • Chain 'F':
    Compound: ahiii tcr beta chain
    Species: MUS MUSCULUS [TaxId:10090]
    Database cross-references and differences (RAF-indexed):
    • PDB 2J8U (Start-237)
    Domains in SCOPe 2.08: d2j8uf1, d2j8uf2
  • Chain 'H':
    Compound: HLA class I histocompatibility antigen, A-2 alpha chain
    Species: Homo sapiens [TaxId:9606]
    Gene: HLA-A, HLAA
    Database cross-references and differences (RAF-indexed):
    • Uniprot P01892 (0-274)
      • engineered mutation (65)
    Domains in SCOPe 2.08: d2j8uh1, d2j8uh2
  • Chain 'I':
    Compound: Beta-2-microglobulin
    Species: Homo sapiens [TaxId:9606]
    Gene: B2M, CDABP0092, HDCMA22P
    Database cross-references and differences (RAF-indexed):
    • Uniprot P61769 (1-99)
      • initiating methionine (0)
    Domains in SCOPe 2.08: d2j8ui2, d2j8ui3
  • Chain 'J':
    Compound: self-peptide P1049
    Species: HOMO SAPIENS, synthetic [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 2J8U (0-8)
  • Chain 'L':
    Compound: ahiii tcr alpha chain
    Species: MUS MUSCULUS [TaxId:10090]
    Database cross-references and differences (RAF-indexed):
    • PDB 2J8U (0-193)
    Domains in SCOPe 2.08: d2j8ul1, d2j8ul2
  • Chain 'M':
    Compound: ahiii tcr beta chain
    Species: MUS MUSCULUS [TaxId:10090]
    Database cross-references and differences (RAF-indexed):
    • PDB 2J8U (Start-237)
    Domains in SCOPe 2.08: d2j8um1, d2j8um2

PDB Chain Sequences:

  • Chain 'A':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >2j8uA (A:)
gshsmryfftsvsrpgrgeprfiavgyvddtqfvrfdsdaasqrmeprapwieqegpeyw
dgetravkahsqthrvdlgtlrgyynqseagshtvqrmygcdvgsdwrflrgyhqyaydg
kdyialkedlrswtaadmaaqttkhkweaahvaeqlraylegtcvewlrrylengketlq
rtdapkthmthhavsdheatlrcwalsfypaeitltwqrdgedqtqdtelvetrpagdgt
fqkwaavvvpsgqeqrytchvqheglpkpltlrwe

  • Chain 'B':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >2j8uB (B:)
miqrtpkiqvysrhpaengksnflncyvsgfhpsdievdllkngeriekvehsdlsfskd
wsfyllyyteftptekdeyacrvnhvtlsqpkivkwdrdm

  • Chain 'C':
    No sequence available.

  • Chain 'E':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >2j8uE (E:)
mdsvtqteglvtlteglpvmlnctyqstyspflfwyvqhlneapklllksftdnkrpehq
gfhatlhkssssfhlqkssaqlsdsalyycalflasssfsklvfgqgtslsvvpniqnpe
pavyqlkdprsqdstlclftdfdsqinvpktmesgtfitdktvldmkamdsksngaiaws
nqtsftcqdifket

  • Chain 'F':
    Sequence, based on SEQRES records: (download) 
    >2j8uF (F:)
meaavtqsprskvavtggkvtlschqtnnhdymywyrqdtghglrlihysyvadstekgd
ipdgykasrpsqenfslilelaslsqtavyfcassdwvsyeqyfgpgtrltvledlrnvt
ppkvslfepskaeiankqkatlvclargffpdhvelswwvngkevhsgvstdpqaykesn
ysyalssrlrvsatfwhnprnhfrcqvqfhglseedkwpegspkpvtqnisaeawgra

    Sequence, based on observed residues (ATOM records): (download) 
    >2j8uF (F:)
eaavtqsprskvavtggkvtlschqtnnhdymywyrqdtghglrlihysyvadstekgdi
pdgykasrpsqenfslilelaslsqtavyfcassdwvsyeqyfgpgtrltvledlrnvtp
pkvslfepskaeiankqkatlvclargffpdhvelswwvngkevhsgvstdpqaykesny
syalssrlrvsatfwhnprnhfrcqvqfhglseedkwpegspkpvtqnisaeawgra

  • Chain 'H':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >2j8uH (H:)
gshsmryfftsvsrpgrgeprfiavgyvddtqfvrfdsdaasqrmeprapwieqegpeyw
dgetravkahsqthrvdlgtlrgyynqseagshtvqrmygcdvgsdwrflrgyhqyaydg
kdyialkedlrswtaadmaaqttkhkweaahvaeqlraylegtcvewlrrylengketlq
rtdapkthmthhavsdheatlrcwalsfypaeitltwqrdgedqtqdtelvetrpagdgt
fqkwaavvvpsgqeqrytchvqheglpkpltlrwe

  • Chain 'I':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >2j8uI (I:)
miqrtpkiqvysrhpaengksnflncyvsgfhpsdievdllkngeriekvehsdlsfskd
wsfyllyyteftptekdeyacrvnhvtlsqpkivkwdrdm

  • Chain 'J':
    No sequence available.

  • Chain 'L':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >2j8uL (L:)
mdsvtqteglvtlteglpvmlnctyqstyspflfwyvqhlneapklllksftdnkrpehq
gfhatlhkssssfhlqkssaqlsdsalyycalflasssfsklvfgqgtslsvvpniqnpe
pavyqlkdprsqdstlclftdfdsqinvpktmesgtfitdktvldmkamdsksngaiaws
nqtsftcqdifket

  • Chain 'M':
    Sequence, based on SEQRES records: (download) 
    >2j8uM (M:)
meaavtqsprskvavtggkvtlschqtnnhdymywyrqdtghglrlihysyvadstekgd
ipdgykasrpsqenfslilelaslsqtavyfcassdwvsyeqyfgpgtrltvledlrnvt
ppkvslfepskaeiankqkatlvclargffpdhvelswwvngkevhsgvstdpqaykesn
ysyalssrlrvsatfwhnprnhfrcqvqfhglseedkwpegspkpvtqnisaeawgra

    Sequence, based on observed residues (ATOM records): (download) 
    >2j8uM (M:)
eaavtqsprskvavtggkvtlschqtnnhdymywyrqdtghglrlihysyvadstekgdi
pdgykasrpsqenfslilelaslsqtavyfcassdwvsyeqyfgpgtrltvledlrnvtp
pkvslfepskaeiankqkatlvclargffpdhvelswwvngkevhsgvstdpqaykesny
syalssrlrvsatfwhnprnhfrcqvqfhglseedkwpegspkpvtqnisaeawgra